Pattern Recognition in Bioinformatics : 4th IAPR International Conference, PRIB 2009, Sheffield, UK, September 7-9, 2009, Proceedings

by Kadirkamanathan, Visakan; Sanguinetti, Guido; Girolami, Mark; Niranjan, Mahesan; Noirel, Josselin

• ISBN13: 9783642040306
• ISBN10: 3642040306
• Edition: 1st
• Format: Paperback
• Copyright: 2009-09-01
• Publisher: Springer-Verlag New York Inc

Summary

This book constitutes the refereed proceedings of the Fourth International Workshop on Pattern Recognition in Bioinformatics, PRIB 2009, held in Sheffield, UK, in September 2009. The 38 revised full papers presented were carefully reviewed and selected from numerous submissions. The topics covered by these papers range from image analysis for biomedical data to systems biology. The conference aims at crating a focus for the development and application of pattern recognition techniques in the biological domain.

Table of Contents

Evolutionary Parameters in Sequence Families: Cold Adaptation of Enzymes	p. 1
MProfiler: A Profile-Based Method for DNA Motif Discovery	p. 13
On Utilizing Optimal and Information Theoretic Syntactic Modeling for Peptide Classification	p. 24
Joint Tracking of Cell Morphology and Motion	p. 36
Multiclass Microarray Gene Expression Analysis Based on Mutual Dependency Models	p. 46
An Efficient Convex Nonnegative Network Component Analysis for Gene Regulatory Network Reconstruction	p. 56
Using Higher-Order Dynamic Bayesian Networks to Model Periodic Data from the Circadian Clock of Arabidopsis Thaliana	p. 67
Sequential Hierarchical Pattern Clustering	p. 79
Syntactic Pattern Recognition Using Finite Inductive Strings	p. 89
Evidence-Based Clustering of Reads and Taxonomic Analysis of Metagenomic Data	p. 102
Avoiding Spurious Feedback Loops in the Reconstruction of Gene Regulatory Networks with Dynamic Bayesian Networks	p. 113
Ligand Electron Density Shape Recognition Using 3D Zernike Descriptors	p. 125
Definition of Valid Proteomic Biomarkers: A Bayesian Solution	p. 137
Inferring Meta-covariates in Classification	p. 150
A Multiobjective Evolutionary Algorithm for Numerical Parameter Space Characterization of Reaction Diffusion Systems	p. 162
Knowledge-Guided Docking of WW Domain Proteins and Flexible Ligands	p. 175
Distinguishing Regional from Within-Codon Rate Heterogeneity in DNA Sequence Alignments	p. 187
A Hybrid Metaheuristic for Biclustering Based on Scatter Search and Genetic Algorithms	p. 199
Di-codon Usage for Gene Classification	p. 211
Counting Patterns in Degenerated Sequences	p. 222
Modelling Stem Cells Lineages with Markov Trees	p. 233
Bi-clustering of Gene Expression Data Using Conditional Entropy	p. 244
c-GAMMA: Comparative Genome Analysis of Molecular Markers	p. 255
Semi-supervised Prediction of Protein Interaction Sentences Exploiting Semantically Encoded Metrics	p. 270
Classification of Protein Interaction Sentences via Gaussian Processes	p. 282
MCMC Based Bayesian Inference for Modeling Gene Networks	p. 293
Efficient Optimal Multi-level Thresholding for Biofilm Image Segmentation	p. 307
A Pattern Classification Approach to DNA Microarray Image Segmentation	p. 319
Drugs and Drug-Like Compounds: Discriminating Approved Pharmaceuticals from Screening-Library Compounds	p. 331
Fast SCOP Classification of Structural Class and Fold Using Secondary Structure Mining in Distance Matrix	p. 344
Short Segment Frequency Equalization: A Simple and Effective Alternative Treatment of Background Models in Motif Discovery	p. 354
Bayesian Optimization Algorithm for the Non-unique Oligonucleotide Probe Selection Problem	p. 365
Microarray Time-Series Data Clustering via Multiple Alignment of Gene Expression Profiles	p. 377
Recursive Neural Networks for Undirected Graphs for Learning Molecular Endpoints	p. 391
Enhancing the Effectiveness of Fingerprint-Based Virtual Screening: Use of Turbo Similarity Searching and of Fragment Frequencies of Occurrence	p. 404
Patterns, Movement and Clinical Diagnosis of Abdominal Adhesions	p. 415
Class Prediction from Disparate Biological Data Sources Using an Iterative Multi-Kernel Algorithm	p. 427
Cross-Platform Analysis with Binarized Gene Expression Data	p. 439
Author Index	p. 451
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